# No taxa labels after lefse\_plot\_cladogram.py

**URL:** <https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868>\
**Category:** LEfSe\
**Created:** [September 4, 2023, 11:25am UTC](https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868 "2023-09-04T11:25:00Z")\
**Posts on this page:** 5\
**Page:** 1

<div class="post-metadata">

**Author:** ![clidia23](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/clidia23/32/2342_2.png) [@clidia23](https://forum.biobakery.org/u/clidia23)\
**Post date:** [September 4, 2023, 11:25am UTC](https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868/1 "2023-09-04T11:25:00Z")

</div>

Hi,

I couldnt get any taxa labels after generating cladogram via lefse\_plot\_cladogram.py within conda environment. I also check all the usage options, however still no taxa labels at right side.

 ![cladogramL6](https://canada1.discourse-cdn.com/flex027/uploads/biobakery/original/2X/1/1cb3705bc47329c838f13208ab2ce2282e644142.jpeg)

There is also no access to Galaxy module. Therefore, I couldnt find a solution to get a progress. Since I need to complete the analysis within few days, I would be grateful for any help!! Thank you

---

<div class="post-metadata">

**Author:** ![KENKEN\_KO](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/kenken_ko/32/2528_2.png) [@KENKEN\_KO](https://forum.biobakery.org/u/KENKEN_KO)\
**Post date:** [November 9, 2023, 5:16am UTC](https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868/2 "2023-11-09T05:16:49Z")

</div>

Hi,

I have the same problem, and also tried all the usage options.

 ![image](https://canada1.discourse-cdn.com/flex027/uploads/biobakery/original/2X/f/fb34aa10063dc91734e118bab514c06bc9c549a4.jpeg)

Until now, the Galaxy module is still no access. [503 Service Unavailable]

I would be grateful for any help!  
Thank you.

Kenken

---

<div class="post-metadata">

**Author:** ![nakajima.a.0517](https://avatars.discourse-cdn.com/v4/letter/n/b782af/32.png) [@nakajima.a.0517](https://forum.biobakery.org/u/nakajima.a.0517)\
**Post date:** [January 16, 2024, 1:05am UTC](https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868/3 "2024-01-16T01:05:16Z")

</div>

Hi,

I can see taxa level by opening resulting .svg files by Adobe Illustrator.  
The legend seems to be shown outside the canvas.

---

<div class="post-metadata">

**Author:** ![TKurakawa](https://avatars.discourse-cdn.com/v4/letter/t/b2d939/32.png) [@TKurakawa](https://forum.biobakery.org/u/TKurakawa)\
**Post date:** [July 7, 2025, 2:27am UTC](https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868/4 "2025-07-07T02:27:34Z")

</div>

I am currently facing the same issue. Have you found any solution?

---

<div class="post-metadata">

**Author:** ![wangyang1749](https://yyz1.discourse-cdn.com/flex027/user_avatar/forum.biobakery.org/wangyang1749/32/3376_2.png) [@wangyang1749](https://forum.biobakery.org/u/wangyang1749)\
**Post date:** [August 26, 2025, 9:06am UTC](https://forum.biobakery.org/t/no-taxa-labels-after-lefse-plot-cladogram-py/5868/5 "2025-08-26T09:06:46Z")

</div>

```auto
plt.savefig(out_file,format=params['format'],facecolor=params['back_color'],edgecolor=params['fore_color'],dpi=params['dpi'], bbox_inches='tight')

```

[https://github.com/SegataLab/lefse/blob/1.1.2/lefse/lefse\_plot\_cladogram.py#L338](https://github.com/SegataLab/lefse/blob/1.1.2/lefse/lefse_plot_cladogram.py#L338)

I found that the problem should be `bbox_inches=‘tight’`, delete it and taxa can be displayed

```auto
plt.savefig(out_file,format=params['format'],facecolor=params['back_color'],edgecolor=params['fore_color'],dpi=params['dpi'])

```